HEADER HYDROLASE 17-APR-19 6JVW TITLE CRYSTAL STRUCTURE OF MALEYLPYRUVATE HYDROLASE FROM SPHINGOBIUM SP. TITLE 2 SYK-6 IN COMPLEX WITH MANGANESE (II) ION AND PYRUVATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MALEYLPYRUVATE HYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SPHINGOBIUM SP. (STRAIN NBRC 103272 / SYK-6); SOURCE 3 ORGANISM_TAXID: 627192; SOURCE 4 STRAIN: NBRC 103272 / SYK-6; SOURCE 5 GENE: SLG_11280; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET30A KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.HONG,K.-J.KIM REVDAT 4 22-NOV-23 6JVW 1 REMARK REVDAT 3 15-NOV-23 6JVW 1 LINK ATOM REVDAT 2 19-JUN-19 6JVW 1 JRNL REVDAT 1 29-MAY-19 6JVW 0 JRNL AUTH H.HONG,H.SEO,K.J.KIM JRNL TITL STRUCTURAL INSIGHTS INTO A MALEYLPYRUVATE HYDROLASE FROM JRNL TITL 2 SPHINGOBIUM SP. SYK-6, A BACTERIUM DEGRADING LIGNIN-DERIVED JRNL TITL 3 ARYLS. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 514 765 2019 JRNL REFN ESSN 1090-2104 JRNL PMID 31079929 JRNL DOI 10.1016/J.BBRC.2019.05.030 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 26338 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1481 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1864 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.2210 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.2850 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3973 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 123 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.25000 REMARK 3 B22 (A**2) : 3.19000 REMARK 3 B33 (A**2) : 0.89000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.13000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.236 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.188 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.134 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.496 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4149 ; 0.009 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3987 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5664 ; 1.619 ; 1.643 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9197 ; 1.256 ; 1.578 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 532 ; 7.608 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 213 ;32.766 ;20.798 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 655 ;15.145 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;16.775 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 550 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4699 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 863 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6JVW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-APR-19. REMARK 100 THE DEPOSITION ID IS D_1300011892. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 7A (6B, 6C1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97935 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27826 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.23300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 6JVV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, LITHIUM SULFATE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 273K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 37.09050 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 HIS A 89 REMARK 465 GLY A 90 REMARK 465 ARG A 91 REMARK 465 GLU A 92 REMARK 465 MET A 93 REMARK 465 GLN A 94 REMARK 465 ALA A 95 REMARK 465 GLN A 96 REMARK 465 TYR A 97 REMARK 465 ARG A 98 REMARK 465 ALA A 99 REMARK 465 THR A 100 REMARK 465 ASN A 101 REMARK 465 GLN A 102 REMARK 465 ARG A 169 REMARK 465 GLU A 170 REMARK 465 GLU A 171 REMARK 465 GLU A 278 REMARK 465 GLY A 279 REMARK 465 MET A 280 REMARK 465 THR A 281 REMARK 465 GLU A 282 REMARK 465 VAL A 283 REMARK 465 PHE A 284 REMARK 465 ALA A 285 REMARK 465 GLN A 286 REMARK 465 PRO A 287 REMARK 465 TYR A 288 REMARK 465 VAL A 289 REMARK 465 PRO A 290 REMARK 465 PRO A 291 REMARK 465 ILE A 292 REMARK 465 ILE A 293 REMARK 465 LYS A 294 REMARK 465 GLN A 295 REMARK 465 ALA A 296 REMARK 465 LEU A 297 REMARK 465 GLU A 298 REMARK 465 HIS A 299 REMARK 465 HIS A 300 REMARK 465 HIS A 301 REMARK 465 HIS A 302 REMARK 465 HIS A 303 REMARK 465 HIS A 304 REMARK 465 ARG B 91 REMARK 465 GLU B 92 REMARK 465 MET B 93 REMARK 465 GLN B 94 REMARK 465 ALA B 95 REMARK 465 GLN B 96 REMARK 465 TYR B 97 REMARK 465 ARG B 98 REMARK 465 ALA B 99 REMARK 465 THR B 100 REMARK 465 ARG B 169 REMARK 465 GLU B 170 REMARK 465 GLU B 171 REMARK 465 GLU B 278 REMARK 465 GLY B 279 REMARK 465 MET B 280 REMARK 465 THR B 281 REMARK 465 GLU B 282 REMARK 465 VAL B 283 REMARK 465 PHE B 284 REMARK 465 ALA B 285 REMARK 465 GLN B 286 REMARK 465 PRO B 287 REMARK 465 TYR B 288 REMARK 465 VAL B 289 REMARK 465 PRO B 290 REMARK 465 PRO B 291 REMARK 465 ILE B 292 REMARK 465 ILE B 293 REMARK 465 LYS B 294 REMARK 465 GLN B 295 REMARK 465 ALA B 296 REMARK 465 LEU B 297 REMARK 465 GLU B 298 REMARK 465 HIS B 299 REMARK 465 HIS B 300 REMARK 465 HIS B 301 REMARK 465 HIS B 302 REMARK 465 HIS B 303 REMARK 465 HIS B 304 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 7 67.03 30.20 REMARK 500 VAL A 84 -111.30 70.66 REMARK 500 THR A 199 25.83 -141.25 REMARK 500 ASN A 207 -128.24 49.83 REMARK 500 ASP A 255 131.91 -36.67 REMARK 500 GLN A 265 -12.73 74.64 REMARK 500 VAL B 84 -120.65 59.39 REMARK 500 ASN B 85 18.11 86.90 REMARK 500 ASP B 163 79.62 -101.24 REMARK 500 ASN B 207 -126.09 48.77 REMARK 500 GLN B 265 -4.02 69.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 132 OE1 REMARK 620 2 GLU A 134 OE2 85.3 REMARK 620 3 ASP A 163 OD2 84.3 100.9 REMARK 620 4 PYR A 401 OXT 95.3 100.3 158.7 REMARK 620 5 PYR A 401 O3 88.8 171.7 84.2 74.5 REMARK 620 6 HOH A 503 O 167.4 82.2 96.8 88.2 103.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 132 OE1 REMARK 620 2 GLU B 134 OE2 88.8 REMARK 620 3 ASP B 163 OD2 83.9 98.3 REMARK 620 4 PYR B 401 O 90.9 103.7 157.3 REMARK 620 5 PYR B 401 O3 80.3 168.1 85.5 71.8 REMARK 620 6 HOH B 527 O 176.3 87.4 96.4 90.2 103.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PYR A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PYR B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 403 DBREF 6JVW A 1 296 UNP G2IPX5 G2IPX5_SPHSK 1 296 DBREF 6JVW B 1 296 UNP G2IPX5 G2IPX5_SPHSK 1 296 SEQADV 6JVW LEU A 297 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW GLU A 298 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS A 299 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS A 300 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS A 301 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS A 302 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS A 303 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS A 304 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW LEU B 297 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW GLU B 298 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS B 299 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS B 300 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS B 301 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS B 302 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS B 303 UNP G2IPX5 EXPRESSION TAG SEQADV 6JVW HIS B 304 UNP G2IPX5 EXPRESSION TAG SEQRES 1 A 304 MET ARG LEU ALA ARG PHE ASP GLY GLY ARG LEU GLY VAL SEQRES 2 A 304 VAL ILE GLY ASP GLU ILE ALA ASP ILE THR ALA LEU THR SEQRES 3 A 304 GLY ALA ASP PRO ALA GLN TRP PRO ASP MET ASN MET ILE SEQRES 4 A 304 ARG LEU ILE ARG ASP PHE GLU GLY LEU ARG GLY ALA ILE SEQRES 5 A 304 GLU ALA ALA LEU PRO GLY LEU ALA ARG ILE PRO LEU ALA SEQRES 6 A 304 GLN VAL SER LEU GLU THR PRO VAL PRO TRP PRO ASN LYS SEQRES 7 A 304 ILE ILE ALA TYR PRO VAL ASN TYR HIS ALA HIS GLY ARG SEQRES 8 A 304 GLU MET GLN ALA GLN TYR ARG ALA THR ASN GLN GLY PHE SEQRES 9 A 304 PHE LEU LYS PRO GLY SER ALA LEU SER GLY PRO THR ASP SEQRES 10 A 304 PRO VAL VAL LEU PRO ALA VAL PRO GLY ARG GLU VAL HIS SEQRES 11 A 304 HIS GLU SER GLU LEU ALA ILE ILE ILE GLY LYS THR CYS SEQRES 12 A 304 ARG SER VAL ALA ARG GLU ASP TRP LYS ASP VAL VAL PHE SEQRES 13 A 304 GLY TYR ALA CYS LEU LEU ASP MET VAL VAL ARG GLY ARG SEQRES 14 A 304 GLU GLU ARG VAL PHE ARG LYS ALA TYR ASP THR PHE CYS SEQRES 15 A 304 PRO VAL GLY PRO TRP ILE THR THR ALA ASP ALA VAL ASN SEQRES 16 A 304 ASP PRO ALA THR LEU ASP MET LYS LEU TRP VAL ASN ASP SEQRES 17 A 304 ASP LEU ARG GLN LYS ALA ASN THR ARG ASP LEU VAL LEU SEQRES 18 A 304 ASP ILE PRO GLY MET ILE ALA THR ALA SER ALA VAL MET SEQRES 19 A 304 THR LEU GLN PRO GLY ASP ILE ILE ALA THR GLY THR PRO SEQRES 20 A 304 GLU GLY VAL GLY PRO VAL VAL ASP GLY ASP ARG ILE ARG SEQRES 21 A 304 ILE VAL ILE ASP GLN VAL GLY GLU MET ALA VAL ASP VAL SEQRES 22 A 304 VAL GLN GLY GLN GLU GLY MET THR GLU VAL PHE ALA GLN SEQRES 23 A 304 PRO TYR VAL PRO PRO ILE ILE LYS GLN ALA LEU GLU HIS SEQRES 24 A 304 HIS HIS HIS HIS HIS SEQRES 1 B 304 MET ARG LEU ALA ARG PHE ASP GLY GLY ARG LEU GLY VAL SEQRES 2 B 304 VAL ILE GLY ASP GLU ILE ALA ASP ILE THR ALA LEU THR SEQRES 3 B 304 GLY ALA ASP PRO ALA GLN TRP PRO ASP MET ASN MET ILE SEQRES 4 B 304 ARG LEU ILE ARG ASP PHE GLU GLY LEU ARG GLY ALA ILE SEQRES 5 B 304 GLU ALA ALA LEU PRO GLY LEU ALA ARG ILE PRO LEU ALA SEQRES 6 B 304 GLN VAL SER LEU GLU THR PRO VAL PRO TRP PRO ASN LYS SEQRES 7 B 304 ILE ILE ALA TYR PRO VAL ASN TYR HIS ALA HIS GLY ARG SEQRES 8 B 304 GLU MET GLN ALA GLN TYR ARG ALA THR ASN GLN GLY PHE SEQRES 9 B 304 PHE LEU LYS PRO GLY SER ALA LEU SER GLY PRO THR ASP SEQRES 10 B 304 PRO VAL VAL LEU PRO ALA VAL PRO GLY ARG GLU VAL HIS SEQRES 11 B 304 HIS GLU SER GLU LEU ALA ILE ILE ILE GLY LYS THR CYS SEQRES 12 B 304 ARG SER VAL ALA ARG GLU ASP TRP LYS ASP VAL VAL PHE SEQRES 13 B 304 GLY TYR ALA CYS LEU LEU ASP MET VAL VAL ARG GLY ARG SEQRES 14 B 304 GLU GLU ARG VAL PHE ARG LYS ALA TYR ASP THR PHE CYS SEQRES 15 B 304 PRO VAL GLY PRO TRP ILE THR THR ALA ASP ALA VAL ASN SEQRES 16 B 304 ASP PRO ALA THR LEU ASP MET LYS LEU TRP VAL ASN ASP SEQRES 17 B 304 ASP LEU ARG GLN LYS ALA ASN THR ARG ASP LEU VAL LEU SEQRES 18 B 304 ASP ILE PRO GLY MET ILE ALA THR ALA SER ALA VAL MET SEQRES 19 B 304 THR LEU GLN PRO GLY ASP ILE ILE ALA THR GLY THR PRO SEQRES 20 B 304 GLU GLY VAL GLY PRO VAL VAL ASP GLY ASP ARG ILE ARG SEQRES 21 B 304 ILE VAL ILE ASP GLN VAL GLY GLU MET ALA VAL ASP VAL SEQRES 22 B 304 VAL GLN GLY GLN GLU GLY MET THR GLU VAL PHE ALA GLN SEQRES 23 B 304 PRO TYR VAL PRO PRO ILE ILE LYS GLN ALA LEU GLU HIS SEQRES 24 B 304 HIS HIS HIS HIS HIS HET PYR A 401 6 HET MN A 402 1 HET PYR B 401 6 HET GOL B 402 6 HET MN B 403 1 HETNAM PYR PYRUVIC ACID HETNAM MN MANGANESE (II) ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 PYR 2(C3 H4 O3) FORMUL 4 MN 2(MN 2+) FORMUL 6 GOL C3 H8 O3 FORMUL 8 HOH *123(H2 O) HELIX 1 AA1 ILE A 22 GLY A 27 1 6 HELIX 2 AA2 MET A 36 ASP A 44 1 9 HELIX 3 AA3 PHE A 45 GLY A 47 5 3 HELIX 4 AA4 LEU A 48 LEU A 56 1 9 HELIX 5 AA5 PRO A 57 LEU A 59 5 3 HELIX 6 AA6 ALA A 65 VAL A 67 5 3 HELIX 7 AA7 PRO A 108 SER A 110 5 3 HELIX 8 AA8 ALA A 147 ASP A 153 5 7 HELIX 9 AA9 ARG A 172 ALA A 177 5 6 HELIX 10 AB1 ASP A 192 VAL A 194 5 3 HELIX 11 AB2 ASP A 196 THR A 199 5 4 HELIX 12 AB3 ARG A 217 LEU A 219 5 3 HELIX 13 AB4 ASP A 222 MET A 234 1 13 HELIX 14 AB5 ILE B 22 GLY B 27 1 6 HELIX 15 AB6 MET B 36 ASP B 44 1 9 HELIX 16 AB7 ASP B 44 LEU B 56 1 13 HELIX 17 AB8 PRO B 57 LEU B 59 5 3 HELIX 18 AB9 ALA B 65 VAL B 67 5 3 HELIX 19 AC1 PRO B 108 SER B 110 5 3 HELIX 20 AC2 ALA B 147 ASP B 153 5 7 HELIX 21 AC3 ARG B 172 ALA B 177 5 6 HELIX 22 AC4 ASP B 192 VAL B 194 5 3 HELIX 23 AC5 ASP B 196 THR B 199 5 4 HELIX 24 AC6 ARG B 217 LEU B 219 5 3 HELIX 25 AC7 ASP B 222 MET B 234 1 13 SHEET 1 AA110 ARG A 61 PRO A 63 0 SHEET 2 AA110 GLU A 18 ASP A 21 -1 N ILE A 19 O ILE A 62 SHEET 3 AA110 ARG A 10 ILE A 15 -1 N VAL A 13 O ALA A 20 SHEET 4 AA110 ARG A 2 PHE A 6 -1 N PHE A 6 O ARG A 10 SHEET 5 AA110 CYS A 182 THR A 190 -1 O ILE A 188 N LEU A 3 SHEET 6 AA110 VAL A 155 LEU A 162 -1 N TYR A 158 O THR A 189 SHEET 7 AA110 SER A 133 ILE A 139 -1 N ALA A 136 O ALA A 159 SHEET 8 AA110 ILE A 241 ALA A 243 -1 O ILE A 242 N ILE A 137 SHEET 9 AA110 ILE A 79 ALA A 81 1 N ILE A 80 O ILE A 241 SHEET 10 AA110 PHE A 105 LYS A 107 -1 O PHE A 105 N ALA A 81 SHEET 1 AA2 4 LEU A 69 GLU A 70 0 SHEET 2 AA2 4 ARG A 2 PHE A 6 -1 N ARG A 5 O GLU A 70 SHEET 3 AA2 4 CYS A 182 THR A 190 -1 O ILE A 188 N LEU A 3 SHEET 4 AA2 4 LEU A 112 SER A 113 1 N SER A 113 O VAL A 184 SHEET 1 AA3 5 VAL A 119 LEU A 121 0 SHEET 2 AA3 5 GLY A 267 GLN A 275 1 O VAL A 274 N LEU A 121 SHEET 3 AA3 5 ARG A 258 ILE A 263 -1 N ILE A 261 O MET A 269 SHEET 4 AA3 5 ASP A 201 VAL A 206 -1 N TRP A 205 O ARG A 260 SHEET 5 AA3 5 ASP A 209 ASN A 215 -1 O GLN A 212 N LEU A 204 SHEET 1 AA4 3 VAL A 165 VAL A 166 0 SHEET 2 AA4 3 VAL A 129 HIS A 130 -1 N HIS A 130 O VAL A 165 SHEET 3 AA4 3 PRO A 252 VAL A 253 -1 O VAL A 253 N VAL A 129 SHEET 1 AA510 ARG B 61 PRO B 63 0 SHEET 2 AA510 GLU B 18 ASP B 21 -1 N ILE B 19 O ILE B 62 SHEET 3 AA510 ARG B 10 ILE B 15 -1 N VAL B 13 O ALA B 20 SHEET 4 AA510 ARG B 2 PHE B 6 -1 N ALA B 4 O GLY B 12 SHEET 5 AA510 CYS B 182 THR B 190 -1 O ILE B 188 N LEU B 3 SHEET 6 AA510 VAL B 155 LEU B 162 -1 N TYR B 158 O THR B 189 SHEET 7 AA510 SER B 133 ILE B 139 -1 N ALA B 136 O ALA B 159 SHEET 8 AA510 ILE B 241 ALA B 243 -1 O ILE B 242 N ILE B 137 SHEET 9 AA510 ILE B 79 ALA B 81 1 N ILE B 80 O ALA B 243 SHEET 10 AA510 PHE B 105 LYS B 107 -1 O PHE B 105 N ALA B 81 SHEET 1 AA6 4 LEU B 69 GLU B 70 0 SHEET 2 AA6 4 ARG B 2 PHE B 6 -1 N ARG B 5 O GLU B 70 SHEET 3 AA6 4 CYS B 182 THR B 190 -1 O ILE B 188 N LEU B 3 SHEET 4 AA6 4 LEU B 112 SER B 113 1 N SER B 113 O VAL B 184 SHEET 1 AA7 5 VAL B 119 LEU B 121 0 SHEET 2 AA7 5 GLY B 267 GLN B 275 1 O VAL B 274 N LEU B 121 SHEET 3 AA7 5 ARG B 258 ILE B 263 -1 N ILE B 261 O MET B 269 SHEET 4 AA7 5 ASP B 201 VAL B 206 -1 N TRP B 205 O ARG B 260 SHEET 5 AA7 5 ASP B 209 ASN B 215 -1 O ALA B 214 N MET B 202 SHEET 1 AA8 3 VAL B 165 VAL B 166 0 SHEET 2 AA8 3 VAL B 129 HIS B 131 -1 N HIS B 130 O VAL B 165 SHEET 3 AA8 3 GLY B 251 VAL B 253 -1 O GLY B 251 N HIS B 131 LINK OE1 GLU A 132 MN MN A 402 1555 1555 2.20 LINK OE2 GLU A 134 MN MN A 402 1555 1555 1.98 LINK OD2 ASP A 163 MN MN A 402 1555 1555 2.01 LINK OXT PYR A 401 MN MN A 402 1555 1555 2.07 LINK O3 PYR A 401 MN MN A 402 1555 1555 2.28 LINK MN MN A 402 O HOH A 503 1555 1555 2.21 LINK OE1 GLU B 132 MN MN B 403 1555 1555 2.24 LINK OE2 GLU B 134 MN MN B 403 1555 1555 2.00 LINK OD2 ASP B 163 MN MN B 403 1555 1555 1.96 LINK O PYR B 401 MN MN B 403 1555 1555 2.23 LINK O3 PYR B 401 MN MN B 403 1555 1555 2.27 LINK MN MN B 403 O HOH B 527 1555 1555 2.30 CISPEP 1 TRP A 33 PRO A 34 0 -11.69 CISPEP 2 GLY A 185 PRO A 186 0 -3.18 CISPEP 3 TRP B 33 PRO B 34 0 -13.95 CISPEP 4 GLY B 185 PRO B 186 0 0.53 SITE 1 AC1 10 TYR A 82 PRO A 83 VAL A 84 PHE A 105 SITE 2 AC1 10 GLU A 132 GLU A 134 ASP A 163 LYS A 176 SITE 3 AC1 10 MN A 402 HOH A 503 SITE 1 AC2 6 GLU A 132 GLU A 134 ASP A 163 LYS A 176 SITE 2 AC2 6 PYR A 401 HOH A 503 SITE 1 AC3 9 TYR B 82 VAL B 84 PHE B 105 GLU B 132 SITE 2 AC3 9 GLU B 134 ASP B 163 LYS B 176 THR B 246 SITE 3 AC3 9 MN B 403 SITE 1 AC4 11 ASN A 77 LYS A 107 PRO A 108 GLY A 109 SITE 2 AC4 11 HOH A 533 ASN B 77 LYS B 78 ILE B 79 SITE 3 AC4 11 LYS B 107 GLY B 109 HOH B 525 SITE 1 AC5 5 GLU B 132 GLU B 134 ASP B 163 PYR B 401 SITE 2 AC5 5 HOH B 527 CRYST1 68.409 74.181 68.727 90.00 119.07 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014618 0.000000 0.008127 0.00000 SCALE2 0.000000 0.013481 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016648 0.00000